Transcriptomic analyses of the recombinant strains.

Illumina RNA sequencing was performed for BPSMSS1 (A), BPSMT733M (B) and BP-BvgSΔ65-SS1 (C). The transcriptomes of BPSM grown in standard conditions or in 50 mM MgSO4 were used as the reference Bvg+ and Bvg- transcriptomes. The data are plotted as in Fig 1C. Two distinct groups of vags are circled in green and blue, with the blue circle encompassing some early vags. Most vrgs are circled in red, and genes coding for the chemotaxis and flagellar operons are circled in grey in panel C, as they stand out in that particular strain. bipA is shown in purple. The complete datasets of those experiments are presented in S1 Table.